Plant Circular RNA Database

Detail information of Os01g0158000_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os01g0158000_circ_g.1
					
						ID in PlantcircBase
						osa_circ_000399
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 3048954-3050051  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os01g0158000						
					
						Parent gene annotation
						
							Importin alpha-2 subunit. (Os01t0158000-01);Importin alpha-2 sub
unit. (Os01t0158000-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os01g0158000_circ_g.2 						
					
						Support reads
						1
					
						Tissues
						shoot
					
						Exon boundary  
						
							Yes-Yes							"Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.

						Splicing signals  
						
							GT-AG							The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.

						Number of exons covered
						Os01t0158000-02:4
Os01t0158000-01:4

General Information
CircRNA Name	Os01g0158000_circ_g.1
ID in PlantcircBase	osa_circ_000399
Alias	NA
Organism	Oryza sativa
Position	chr1: 3048954-3050051 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os01g0158000
Parent gene annotation	Importin alpha-2 subunit. (Os01t0158000-01);Importin alpha-2 sub unit. (Os01t0158000-02)
Parent gene strand	+
Alternative splicing	Os01g0158000_circ_g.2
Support reads	1
Tissues	shoot
Exon boundary	Yes-Yes "Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.
Splicing signals	GT-AG The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.
Number of exons covered	Os01t0158000-02:4 Os01t0158000-01:4

			
						 Experimental Information
					
						Sanger sequencing for BSS  
						
							NA							Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".

						PCR primers for BSS   
						
							NA							PCR primers used in back-splicing site (BSS) validation.

						Sanger sequencing for FL   
						
							NA							Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.

						PCR primers for FL   
						
							NA							 PCR primers used in full-length (FL) sequence validation.

Experimental Information
Sanger sequencing for BSS	NA Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".
PCR primers for BSS	NA PCR primers used in back-splicing site (BSS) validation.
Sanger sequencing for FL	NA Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.
PCR primers for FL	NA PCR primers used in full-length (FL) sequence validation.

			
				
						 Sequences
					

				
						Splice junction sequence  
						
							TTGTTTCTCTTGTAATCTAGGGGCCTGATCCAAAGGCTGCAAATGAGCTTATTACCATTGATGG
CGTGCTAAATGCAATTATAGCGAGCTTGGAAAAGGAggggaaaggcgttcagaagaagaagata
gaggcgcttcgtgatttgagacgcttgttgtcacagcctgaagtacctctagttgatactgcaa
ttaaagct

									
								

					

						Assembled circRNA sequence  
						
							Yes
The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).

					

						Full-length trsnacripts
						
							Transcript length: 522
Transcript exons: 3048954-3049107,3049253-3049355,3049554-3049738,3049972-
3050051
GGGGAAAGGCGTTCAGAAGAAGAAGATAGAGGCGCTTCGTGATTTGAGACGCTTGTTGTCACAG
CCTGAAGTACCTCTAGTTGATACTGCAATTAAAGCTGGAGCAGTCCCTCTTTTAGTGCAATATC
TATCCTTTGGATCATCAGATGAGCAGTTGCTAGAGGCAGCTTGGTGCCTTACAAACATAGCAGC
TGGGGAACCAGAAGAAACAAAATCCTTGCTGCCTGCTCTACCATTGCTTATTGCTCACCTTGGT
GAAAAGAGCTCCACACTTGTTGCCGAGCAATGTGCATGGGCCATTGGTAATGTTGCTGGTGAAG
GAGCAGAGCTGAGAAGCACATTACTTGCACAAGGTGCTTTGCGGCCTCTTACCCGTTTAATGTT
CTCCAGTAAAGGTTCTACAGCAAGAACTGCTGCTTGGGCTATGTCAAATCTCATCAAGGGGCCT
GATCCAAAGGCTGCAAATGAGCTTATTACCATTGATGGCGTGCTAAATGCAATTATAGCGAGCT
TGGAAAAGGA
						
					

						Genomic sequence
						
							GGGGAAAGGCGTTCAGAAGAAGAAGATAGAGGCGCTTCGTGATTTGAGACGCTTGTTGTCACAG
CCTGAAGTACCTCTAGTTGATACTGCAATTAAAGCTGGAGCAGTCCCTCTTTTAGTGCAATATC
TATCCTTTGGATCATCAGATGAGCAGGTTGATCATGCTGCACTAATTGTTTCGAAGCTATATCT
TCATTAAATATTATAAAGCTGAGTTGAATGTGTTCAGCATTATAATTCTATATCTTTTGTTATT
TGAAGTTTGTCTCTTATCAGGACCATTCATGATTTTAATGCAGTTGCTAGAGGCAGCTTGGTGC
CTTACAAACATAGCAGCTGGGGAACCAGAAGAAACAAAATCCTTGCTGCCTGCTCTACCATTGC
TTATTGCTCACCTTGGTGGTTAGTTTCATCTCTCTTGTTGGTTGAAATTAAATAATTTTCTTCA
ATGCTCATCTTCATTCCCATTAGGAAGATATTGCTATATGTTCCTGTATGCGTTTCTCAAGAAT
GATGTTTGTAGATATTTTTCTACTATTTAGTTTGAAATCAGAGCTTTGACTATGCTAAAAATTT
AATTGAGCTACCTATGTTGGTTAGAAAAGAGCTCCACACTTGTTGCCGAGCAATGTGCATGGGC
CATTGGTAATGTTGCTGGTGAAGGAGCAGAGCTGAGAAGCACATTACTTGCACAAGGTGCTTTG
CGGCCTCTTACCCGTTTAATGTTCTCCAGTAAAGGTTCTACAGCAAGAACTGCTGCTTGGGCTA
TGTCAAATCTCATCAAGGTTGTACTGATAAACTCTCTCTTAATTTTCTAAGCTATCGTTGTAGG
CAAGCACAAACTACATACACGTGCTCTCTGAACCGTGCTATTTTCTAAGCTATCATTGTTAGTT
TTAGCATTCTTTTGTTATAGAAAACCTTAAGCCATGTTCCAAAACATAATTGGCTTGTAATACA
TGCTTATCTATTTGCAGAGCATCATTTCACTAACCCATTTGTTTCTCTTGTAATCTAGGGGCCT
GATCCAAAGGCTGCAAATGAGCTTATTACCATTGATGGCGTGCTAAATGCAATTATAGCGAGCT
TGGAAAAGGA
						
					

			
		

Sequences
Splice junction sequence	TTGTTTCTCTTGTAATCTAGGGGCCTGATCCAAAGGCTGCAAATGAGCTTATTACCATTGATGG CGTGCTAAATGCAATTATAGCGAGCTTGGAAAAGGAggggaaaggcgttcagaagaagaagata gaggcgcttcgtgatttgagacgcttgttgtcacagcctgaagtacctctagttgatactgcaa ttaaagct
Assembled circRNA sequence	Yes The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).
Full-length trsnacripts	Transcript length: 522 Transcript exons: 3048954-3049107,3049253-3049355,3049554-3049738,3049972- 3050051 GGGGAAAGGCGTTCAGAAGAAGAAGATAGAGGCGCTTCGTGATTTGAGACGCTTGTTGTCACAG CCTGAAGTACCTCTAGTTGATACTGCAATTAAAGCTGGAGCAGTCCCTCTTTTAGTGCAATATC TATCCTTTGGATCATCAGATGAGCAGTTGCTAGAGGCAGCTTGGTGCCTTACAAACATAGCAGC TGGGGAACCAGAAGAAACAAAATCCTTGCTGCCTGCTCTACCATTGCTTATTGCTCACCTTGGT GAAAAGAGCTCCACACTTGTTGCCGAGCAATGTGCATGGGCCATTGGTAATGTTGCTGGTGAAG GAGCAGAGCTGAGAAGCACATTACTTGCACAAGGTGCTTTGCGGCCTCTTACCCGTTTAATGTT CTCCAGTAAAGGTTCTACAGCAAGAACTGCTGCTTGGGCTATGTCAAATCTCATCAAGGGGCCT GATCCAAAGGCTGCAAATGAGCTTATTACCATTGATGGCGTGCTAAATGCAATTATAGCGAGCT TGGAAAAGGA
Genomic sequence	GGGGAAAGGCGTTCAGAAGAAGAAGATAGAGGCGCTTCGTGATTTGAGACGCTTGTTGTCACAG CCTGAAGTACCTCTAGTTGATACTGCAATTAAAGCTGGAGCAGTCCCTCTTTTAGTGCAATATC TATCCTTTGGATCATCAGATGAGCAGGTTGATCATGCTGCACTAATTGTTTCGAAGCTATATCT TCATTAAATATTATAAAGCTGAGTTGAATGTGTTCAGCATTATAATTCTATATCTTTTGTTATT TGAAGTTTGTCTCTTATCAGGACCATTCATGATTTTAATGCAGTTGCTAGAGGCAGCTTGGTGC CTTACAAACATAGCAGCTGGGGAACCAGAAGAAACAAAATCCTTGCTGCCTGCTCTACCATTGC TTATTGCTCACCTTGGTGGTTAGTTTCATCTCTCTTGTTGGTTGAAATTAAATAATTTTCTTCA ATGCTCATCTTCATTCCCATTAGGAAGATATTGCTATATGTTCCTGTATGCGTTTCTCAAGAAT GATGTTTGTAGATATTTTTCTACTATTTAGTTTGAAATCAGAGCTTTGACTATGCTAAAAATTT AATTGAGCTACCTATGTTGGTTAGAAAAGAGCTCCACACTTGTTGCCGAGCAATGTGCATGGGC CATTGGTAATGTTGCTGGTGAAGGAGCAGAGCTGAGAAGCACATTACTTGCACAAGGTGCTTTG CGGCCTCTTACCCGTTTAATGTTCTCCAGTAAAGGTTCTACAGCAAGAACTGCTGCTTGGGCTA TGTCAAATCTCATCAAGGTTGTACTGATAAACTCTCTCTTAATTTTCTAAGCTATCGTTGTAGG CAAGCACAAACTACATACACGTGCTCTCTGAACCGTGCTATTTTCTAAGCTATCATTGTTAGTT TTAGCATTCTTTTGTTATAGAAAACCTTAAGCCATGTTCCAAAACATAATTGGCTTGTAATACA TGCTTATCTATTTGCAGAGCATCATTTCACTAACCCATTTGTTTCTCTTGTAATCTAGGGGCCT GATCCAAAGGCTGCAAATGAGCTTATTACCATTGATGGCGTGCTAAATGCAATTATAGCGAGCT TGGAAAAGGA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.240953005

Conservation Information
Conserved circRNAs	NA
PMCS	0.240953005

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							3049677-3050048(+)
						
						Potential amino acid sequence
						
							MFSSKGSTARTAAWAMSNLIKGPDPKAANELITIDGVLNAIIASLEKEGKGVQKKKIEALRDLR
RLLSQPEVPLVDTAIKAGAVPLLVQYLSFGSSDEQLLEAAWCLTNIAAGEPEETKSLLPALPLL
IAHLGEKSSTLVAEQCAWAIGNVAGEGAELRSTLLAQGALRPLTRLMFSSKGSTARTAAWAMSN
LIKGPDPKAANELITIDGVLNAIIASLEKEGKGVQKKKIEALRDLRRLLSQPEVPLVDTAIKAG
AVPLLVQYLSFGSSDEQLLEAAWCLTNIAAGEPEETKSLLPALPLLIAHLGEKSSTLVAEQCAW
AIGNVAGEGAELRSTLLAQGALRPLTRLMFSSKGSTARTAAWAMSNLIKGPDPKAANELITIDG
VLNAIIASLEKEGKGVQKKKIEALRDLRRLLSQPEVPLVDTAIKAGAVPLLVQYLSFGSSDEQL
LEAAWCLTNIAAGEPEETKSLLPALPLLIAHLGEKSSTLVAEQCAWAIGNVAGEGAELRSTLLA
QGALRPLTRLMFSSKGSTARTAAWAMSNLIKGPDPKAANELITIDGVLNAIIASLEK(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	3049677-3050048(+)
Potential amino acid sequence	MFSSKGSTARTAAWAMSNLIKGPDPKAANELITIDGVLNAIIASLEKEGKGVQKKKIEALRDLR RLLSQPEVPLVDTAIKAGAVPLLVQYLSFGSSDEQLLEAAWCLTNIAAGEPEETKSLLPALPLL IAHLGEKSSTLVAEQCAWAIGNVAGEGAELRSTLLAQGALRPLTRLMFSSKGSTARTAAWAMSN LIKGPDPKAANELITIDGVLNAIIASLEKEGKGVQKKKIEALRDLRRLLSQPEVPLVDTAIKAG AVPLLVQYLSFGSSDEQLLEAAWCLTNIAAGEPEETKSLLPALPLLIAHLGEKSSTLVAEQCAW AIGNVAGEGAELRSTLLAQGALRPLTRLMFSSKGSTARTAAWAMSNLIKGPDPKAANELITIDG VLNAIIASLEKEGKGVQKKKIEALRDLRRLLSQPEVPLVDTAIKAGAVPLLVQYLSFGSSDEQL LEAAWCLTNIAAGEPEETKSLLPALPLLIAHLGEKSSTLVAEQCAWAIGNVAGEGAELRSTLLA QGALRPLTRLMFSSKGSTARTAAWAMSNLIKGPDPKAANELITIDGVLNAIIASLEK(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os01g0158000_circ_g.1

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